FlyBase Gene Report: Dmel\Msr-110

General Information

Symbol

Dmel\Msr-110

Species

D. melanogaster

Name

Msr-110

Annotation Symbol

CG10596

Feature Type

protein_coding_gene

FlyBase ID

FBgn0015766

Gene Model Status

Current

Stock Availability

6 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

64D3-64D3

Sequence location

3L:5,566,919..5,577,348 [-]

Recombination map

3-14

RefSeq locus

NT_037436 REGION:5566919..5577348

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (2 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

located_in membrane

inferred from sequence model

(Saenz-Robles et al., 1995)

is_active_in nucleolus

inferred from biological aspect of ancestor with PANTHER:PTN001273887

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Msr-110 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q8IQ63)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.46

Gene model reviewed during 5.55

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Msr-110-RA

FBtr0077131

NM_168123

2722

617

Msr-110-RB

FBtr0077132

NM_139716

2695

608

Msr-110-RC

FBtr0077133

NM_168124

2600

625

Msr-110-RD

FBtr0345001

NM_001300013

2686

605

Additional Transcript Data and Comments

Reported size (kB)

2.8 (northern blot)

(Saenz-Robles et al., 1995)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Msr-110-PA

FBpp0076837

70.5

617

4.67

FBpp0076838

69.4

608

4.64

FBpp0076839

71.8

625

4.86

FBpp0311254

69.1

605

4.61

X2JCI8

NP_001286942

AHN57967

Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments

Reported size (kDa)

608 (aa); 69 (kD predicted)

(Saenz-Robles et al., 1995)

Comments

External Data

Crossreferences

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Msr-110 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.44

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 11

embryonic/larval pharynx

Comment: late stage 11

(Saenz-Robles et al., 1995)

inclusive hindgut primordium

(Saenz-Robles et al., 1995)

stomodeum

Comment: late stage 11

(Saenz-Robles et al., 1995)

median tooth

Comment: late stage 11

(Saenz-Robles et al., 1995)

epidermis

Comment: late stage 11

(Saenz-Robles et al., 1995)

posterior spiracle primordium

Comment: late stage 11

(Saenz-Robles et al., 1995)

embryonic stage 11 -- 12

anal pad primordium

Comment: reported as anal pad specific anlage

(Fisher et al., 2012)

dorsal epidermis primordium

(Fisher et al., 2012)

hindgut proper primordium

(Fisher et al., 2012)

large intestine primordium

Comment: reported as large intestine specific anlage

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic anal pad

(Fisher et al., 2012)

embryonic dorsal epidermis

(Fisher et al., 2012)

embryonic head epidermis

(Fisher et al., 2012)

embryonic head sensory system

(Fisher et al., 2012)

embryonic hindgut

(Fisher et al., 2012)

embryonic large intestine

(Fisher et al., 2012)

embryonic ventral epidermis

(Fisher et al., 2012)

prothoracic gland

(Fisher et al., 2012)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 11

anal pad | presumptive

(Saenz-Robles et al., 1995)

larval antenno-maxillary sensory complex | presumptive

(Saenz-Robles et al., 1995)

embryonic stage 15 -- 17

Comment: reference states 12-18 hr AEL

(Saenz-Robles et al., 1995)

larval stage

imaginal disc

(Saenz-Robles et al., 1995)

Additional Descriptive Data

Msr-110 transcript is detected in late (12-18 hr) embryos, and in larval imaginal discs. Expression in the embryo is first detected in early stage 11, in the presumptive anal plates. In late stage 11 embryos, expression is detected in the hindgut primordia, cells which will contribute to the posterior spiracle, the antenno-maxillary complex, the pharynx, the median tooth, the proventriculus, and the presumptive epidermis.

(Saenz-Robles et al., 1995)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Msr-110 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\Msr-110

View exonic expression by tissue for Dmel\Msr-110

Bulk Downloads

RNA-Seq RPKM values for all genes

Reference

See Gelbart and Emmert, 2013 for analysis details and data files for all genes.

Developmental Proteome: Life Cycle

Developmental Proteome: Embryogenesis

External Data and Images

Linkouts

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0015766

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

38629/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0015766

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0015766

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0015766

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG10596

Flygut - An atlas of the Drosophila adult midgut

FBgn0015766

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\Msr-110

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 7-8
Stages(s) 11-12
Stages(s) 13-16

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 4 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Msr-110

Transgenic constructs containing regulatory region of Msr-110

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3L)Exel6105

(Ryder, 2004.4.26)

Inferred from location ( 7 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

partially lethal, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

Msr-110^GD2317

viable, with Scer\GAL4^pnr-MD237

Msr-110^GD2317

Other Phenotypes

Allele

abnormal flight, with Scer\GAL4^Mef2.PR

Msr-110^GD2317

short lived, with Scer\GAL4^Mef2.PR

Msr-110^GD2317

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (0)

Mus musculus (laboratory mouse) (0)

Xenopus tropicalis (Western clawed frog) (0)

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP006063

9 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Msr-110. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (0)

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 0 )

Allele

Disease

Evidence

References

Potential Models Based on Orthology ( 0 )

Human Ortholog

Disease

Evidence

References

Modifiers Based on Experimental Evidence ( 0 )

Allele

Disease

Interaction

References

Disease Associations of Human Orthologs (via DIOPT v9.1 and OMIM)

Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.

Homo sapiens (Human)

Gene name

Score

OMIM

OMIM Phenotype

DO term

Complementation?

Transgene?

Functional Complementation Data

Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.

Interactions

Summary of Physical Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

RNA-RNA

Physical Interaction

Assay

References

Msr-110 - mir-1

luminiscence technology

(Easow et al., 2007)

protein-protein

Physical Interaction

Assay

References

Msr-110 - HP6

two hybrid

(Hu et al., 2017.6.13)

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

64092

DroID - A comprehensive database of gene and protein interactions.

FBgn0015766

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-14

Cytogenetic map

64D3-64D3

Sequence location

3L:5,566,919..5,577,348 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

64D3-64D3

Limits computationally determined from genome sequence between P{PZ}sinu⁰⁶⁵²⁴ and P{PZ}Bre1⁰¹⁶⁴⁰

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-14

(FlyBase, 2016)

3-13.3

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (6)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

51034

y¹ v¹; P{TRiP.HMJ21161}attP40

63846

w¹¹¹⁸; PBac{IT.GAL4}Msr-110^0840-G4

91285

y¹ w^*; TI{CRIMIC.TG4.0}Msr-110^{CR01724-TG4.0}/TM3, Sb¹ Ser¹

NIG-Fly

10596R-2

P{NIG.10596R}2

HMJ21161

y¹ v¹; P{TRiP.HMJ21161}attP40/CyO

VDRC

v5033

w¹¹¹⁸; P{GD2317}v5033/TM3

Genomic Clones (28)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (227)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0015766

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0015766

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

snmRNA:357 is derived from the ORF of Msr-110.

(Yuan et al., 2003)

Targets of en regulation are identified using affinity chromatography with an en containing matrix to select genomic fragments that tightly bind en. Genetic and molecular analysis of the binding sequence identifies Msr-110. Normal expression of Msr-110 is dependent upon en function.

(Saenz-Robles et al., 1995)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Msr-110 CG10596

(Gabrielian, 1999.11)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

CG10596

(Christis and Munro, 2012, Ni et al., 2010.12.1, Easow et al., 2007, Eulalio et al., 2007, Jagadeeshan and Singh, 2005)

MSR-110

(Albert et al., 2018)

Msr-110

(Fanara et al., 2023, Voutyraki et al., 2023, Pang et al., 2021, Aboukilila et al., 2020, Gene Disruption Project members, 2018-, Hu et al., 2017.6.13, Clandinin and Owens, 2016-, Japanese National Institute of Genetics, 2012.5.21, Blanco et al., 2010, Easow et al., 2007, Sztal et al., 2007)

Name Synonyms

Engrailed nuclear homeoprotein-regulated gene

(Yuan et al., 2003)

Msr-110

(Easow et al., 2007)

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 50 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

38629

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

Q8IQ63

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

Q8IQ63

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0015766

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

38629/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0015766

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0015766

FlyMine - An integrated database for Drosophila genomics

FBgn0015766

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG10596

MARRVEL_MODEL - MARRVEL (model organism gene)

38629

Linkouts

BioGRID - A database of protein and genetic interactions.

64092

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0015766

DroID - A comprehensive database of gene and protein interactions.

FBgn0015766

DRSC - Results frm RNAi screens

FBgn0015766

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0015766

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0015766

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG10596

Flygut - An atlas of the Drosophila adult midgut

FBgn0015766

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC002287

References (41)

The following external sites may use different assemblies or annotations than FlyBase.

-0.44

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